Download Alignment
(Note: includes all positions in family; we filtered this alignment to remove sites that had > 75% gaps before running GREMLIN. )

Length:

149

Sequences:

947

Seq/Len:

6.36

HH_delta:

0.623 (20Jul13)

GREMLIN Results:
Residue pairs sorted by strength in covariance:Legend: The darker and larger the blue dots, the higher strength in covariance. Below we provide the list of the top [1.5 x length] gremlin predictions, sequence seperation > 3. The i and j are positions as given in the consensus sequence. Show Scaled Distribution

i

j

Raw Score

Scaled Score

136_K

142_D

0.25674

2.494

134_R

137_T

0.2391

2.323

93_D

146_D

0.20699

2.011

49_G

125_G

0.1972

1.916

134_R

138_L

0.1632

1.585

39_E

42_R

0.1619

1.573

120_Y

132_L

0.15838

1.538

50_K

54_E

0.15553

1.511

137_T

146_D

0.1555

1.510

136_K

146_D

0.15422

1.498

29_G

32_E

0.14983

1.455

97_C

119_D

0.14737

1.431

35_E

75_S

0.14599

1.418

35_E

50_K

0.14269

1.386

136_K

144_C

0.14162

1.376

93_D

144_C

0.14066

1.366

136_K

143_D

0.14002

1.360

62_D

65_K

0.13708

1.332

73_Y

79_F

0.13562

1.317

65_K

69_M

0.13483

1.310

103_W

119_D

0.13074

1.270

97_C

116_C

0.1307

1.270

22_K

105_E

0.12987

1.261

24_L

27_E

0.12952

1.258

142_D

146_D

0.12879

1.251

23_A

43_R

0.12736

1.237

71_K

74_P

0.12395

1.204

63_F

90_F

0.12392

1.204

94_F

119_D

0.12335

1.198

137_T

147_F

0.12318

1.197

69_M

78_V

0.1227

1.192

52_L

76_D

0.12238

1.189

69_M

72_D

0.12183

1.183

54_E

58_R

0.12172

1.182

41_I

45_G

0.11997

1.165

80_E

96_R

0.11967

1.162

81_E

95_T

0.11951

1.161

51_A

55_R

0.11905

1.156

44_F

48_R

0.1185

1.151

99_Y

123_A

0.11829

1.149

43_R

46_R

0.11821

1.148

91_E

146_D

0.11774

1.144

54_E

57_R

0.11699

1.136

16_W

20_L

0.11649

1.132

49_G

53_A

0.11619

1.129

95_T

138_L

0.11564

1.123

55_R

68_E

0.11383

1.106

99_Y

147_F

0.1125

1.093

120_Y

134_R

0.1118

1.086

95_T

143_D

0.11153

1.083

67_A

86_D

0.11048

1.073

91_E

148_R

0.11022

1.071

71_K

75_S

0.10955

1.064

70_M

78_V

0.10781

1.047

16_W

98_P

0.10775

1.047

23_A

27_E

0.1069

1.038

48_R

115_Y

0.10613

1.031

30_P

50_K

0.10497

1.020

137_T

142_D

0.10495

1.019

15_F

19_A

0.10468

1.017

28_M

33_A

0.10379

1.008

53_A

125_G

0.10372

1.007

95_T

144_C

0.10298

1.000

135_T

146_D

0.10278

0.998

63_F

86_D

0.10222

0.993

81_E

135_T

0.1019

0.990

123_A

127_N

0.10187

0.990

73_Y

94_F

0.10147

0.986

116_C

145_C

0.10126

0.984

66_F

70_M

0.10119

0.983

85_D

88_D

0.10092

0.980

120_Y

123_A

0.10024

0.974

118_I

122_M

0.10011

0.972

94_F

147_F

0.09965

0.968

25_I

34_E

0.0996

0.967

32_E

46_R

0.09932

0.965

67_A

75_S

0.09919

0.963

42_R

121_A

0.09898

0.961

69_M

77_W

0.09823

0.954

94_F

103_W

0.09806

0.953

64_E

85_D

0.09691

0.941

137_T

141_G

0.09621

0.935

55_R

75_S

0.09581

0.931

46_R

50_K

0.09575

0.930

45_G

48_R

0.09519

0.925

96_R

101_E

0.09514

0.924

21_Y

33_A

0.09483

0.921

85_D

89_E

0.09472

0.920

23_A

28_M

0.09431

0.916

79_F

98_P

0.09387

0.912

52_L

69_M

0.09383

0.911

76_D

137_T

0.09331

0.906

92_F

142_D

0.093

0.903

117_D

135_T

0.09277

0.901

47_K

50_K

0.09271

0.901

96_R

103_W

0.09254

0.899

52_L

79_F

0.09233

0.897

87_E

90_F

0.0923

0.897

58_R

83_V

0.09211

0.895

54_E

67_A

0.0918

0.892

96_R

99_Y

0.09163

0.890

30_P

105_E

0.09129

0.887

41_I

115_Y

0.09123

0.886

45_G

118_I

0.09075

0.882

133_E

136_K

0.09061

0.880

112_G

132_L

0.09054

0.879

96_R

119_D

0.09052

0.879

49_G

104_K

0.09025

0.877

73_Y

77_W

0.08998

0.874

57_R

60_P

0.08976

0.872

79_F

94_F

0.08949

0.869

112_G

115_Y

0.0889

0.864

43_R

61_D

0.0885

0.860

135_T

148_R

0.08846

0.859

18_Y

138_L

0.08842

0.859

67_A

85_D

0.08836

0.858

54_E

125_G

0.0883

0.858

98_P

119_D

0.08823

0.857

81_E

93_D

0.08796

0.854

57_R

61_D

0.08786

0.853

27_E

39_E

0.08728

0.848

40_A

44_F

0.08697

0.845

53_A

61_D

0.08683

0.843

77_W

132_L

0.08682

0.843

82_V

90_F

0.08677

0.843

17_F

117_D

0.08674

0.843

78_V

96_R

0.08658

0.841

112_G

119_D

0.08658

0.841

124_E

129_G

0.08658

0.841

134_R

146_D

0.08647

0.840

120_Y

126_F

0.0863

0.838

97_C

145_C

0.08613

0.837

97_C

138_L

0.08588

0.834

25_I

113_P

0.08501

0.826

55_R

143_D

0.08479

0.824

27_E

47_K

0.08476

0.823

51_A

87_E

0.08443

0.820

98_P

125_G

0.08436

0.819

24_L

124_E

0.08435

0.819

94_F

98_P

0.08433

0.819

86_D

89_E

0.08421

0.818

46_R

57_R

0.08397

0.816

72_D

75_S

0.08379

0.814

99_Y

134_R

0.08331

0.809

134_R

147_F

0.08326

0.809

84_E

124_E

0.08322

0.808

98_P

147_F

0.0826

0.802

114_I

139_A

0.0826

0.802

96_R

138_L

0.08258

0.802

64_E

84_E

0.08255

0.802

22_K

30_P

0.08224

0.799

44_F

72_D

0.08214

0.798

40_A

48_R

0.08206

0.797

45_G

94_F

0.08195

0.796

78_V

94_F

0.08176

0.794

62_D

69_M

0.0817

0.794

42_R

55_R

0.08168

0.793

30_P

101_E

0.08148

0.791

50_K

68_E

0.08146

0.791

63_F

88_D

0.08072

0.784

61_D

71_K

0.08058

0.783

62_D

127_N

0.08032

0.780

33_A

122_M

0.08014

0.778

46_R

125_G

0.08004

0.777

25_I

114_I

0.07985

0.776

26_E

58_R

0.07985

0.776

33_A

40_A

0.07984

0.776

68_E

71_K

0.07977

0.775

22_K

26_E

0.07955

0.773

52_L

119_D

0.07949

0.772

52_L

66_F

0.07928

0.770

18_Y

21_Y

0.07912

0.769

117_D

144_C

0.07908

0.768

30_P

133_E

0.07906

0.768

78_V

119_D

0.07901

0.767

45_G

73_Y

0.07881

0.766

56_M

65_K

0.07861

0.764

22_K

43_R

0.07845

0.762

73_Y

119_D

0.07836

0.761

79_F

99_Y

0.07836

0.761

30_P

39_E

0.07777

0.755

41_I

77_W

0.07771

0.755

98_P

118_I

0.07763

0.754

Legend: The value of the raw score is the function of the learning procedure, L2 normalization and APC (entropic) correction. These are to be used for relative ranking only.

HHsearch Results:
Top (length/2) GREMLIN results overlayed on top 10 PDB hits: Legend: The grey circles underneath are pdb residue contacts (min distance < 5 Angstroms). The coloring of these circles is based on HHsearch results which uses the overall probability, per-site alignment prob and agreement of top hits weighted by HHsearch score (Note we only consider monomeric contacts, there might be homo-oligomeric contacts in the pdb that are not shown.)